NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0187812_1000003

Scaffold Ga0187812_1000003


Overview

Basic Information
Taxon OID3300017821 Open in IMG/M
Scaffold IDGa0187812_1000003 Open in IMG/M
Source Dataset NameWetland sediment microbial communities from Neuse River Estuary, North Carolina, USA - ASW-S_2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)128210
Total Scaffold Genes213 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)191 (89.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Wetlands → Sediment → Freshwater Sediment → Coastal Wetland Sediment Microbial Communities From The Mid-Atlantic And Southeast Atlantic Coast Of Usa, Responding To Salinity Intrusion.

Source Dataset Sampling Location
Location NameUSA: North Carolina
CoordinatesLat. (o)35.9061Long. (o)-76.1569Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F021821Metagenome / Metatranscriptome217Y
F072001Metagenome / Metatranscriptome121Y

Sequences

Protein IDFamilyRBSSequence
Ga0187812_1000003103F072001GGAGGMPRVQLPNGCAGFADGDTKYMAVNGPGSYVNIDDTDPAGQRALAKLRAQDYASAGLVDAGPEKFYVRKGPEGRWCPSCPSNTIWHSWTKHCPECGAETVPESEMTCVKPEGQYMPYGPVY
Ga0187812_1000003112F021821GGCGGVPLVSVQSFLFSLLDQLPMPYGLPTAKAYVTPPDPRVQAKIPAIYIWPADGDENRTEQLGGTVPRNTGPGTSSGTKGIMHRFDVYLTWFSAGAGVDQDPKFPGMVDALMFKLRTSQPNPYAATDPNTGLTSTIYNVGENMVYRTGIESTADERTKRYDALIQVDVWEIINA
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